Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011749.1 Kokia drynarioides strain JFW-HI SEQ_126743, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 267667
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 22 characters in sequence are not A, C, G, or T
Found at i:133 original size:13 final size:13
Alignment explanation
Indices: 115--172 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
105 TTTATTGTTT
115 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
**
128 AAAAAAAGTCGAAA
1 AAAAAAA-AAGAAA
* **
142 AGAAAAATTGAAA
1 AAAAAAAAAGAAA
155 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
168 AAAAA
1 AAAAA
173 GACAAAAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
13 27 0.73
14 10 0.27
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:1229 original size:23 final size:25
Alignment explanation
Indices: 1203--1250 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1193 CCAATTAGGG
1203 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
1226 AATTATCTTTTTAGAATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
1251 TATATTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 10 0.45
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:7686 original size:28 final size:26
Alignment explanation
Indices: 7637--7692 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
7627 AAATAAAAAG
*
7637 AATTTTTAAAAATTATAAAAATTTCA
1 AATTTTTAAAAATTATAAAAATTGCA
7663 AATTTATTGAAAAA-TATATAAAATTGCA
1 AATTT-TT-AAAAATTATA-AAAATTGCA
7691 AA
1 AA
7693 AGAATTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 5 0.19
27 6 0.23
28 15 0.58
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
AATTTTTAAAAATTATAAAAATTGCA
Found at i:9837 original size:12 final size:12
Alignment explanation
Indices: 9820--9866 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
9810 GTTCACGAAC
9820 AAGCTCGTTTAT
1 AAGCTCGTTTAT
9832 AAGCTCGTTTATT
1 AAGCTCGTTTA-T
9845 AA-CTCGTTTAT
1 AAGCTCGTTTAT
9856 -AGCTCGTTTAT
1 AAGCTCGTTTAT
9867 TTATTAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.03
11 10 0.30
12 19 0.58
13 3 0.09
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:9863 original size:23 final size:24
Alignment explanation
Indices: 9823--9867 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
9813 CACGAACAAG
9823 CTCGTTTATAAGCTCGTTTATTAA
1 CTCGTTTATAAGCTCGTTTATTAA
9847 CTCGTTTAT-AGCTCGTTTATT
1 CTCGTTTATAAGCTCGTTTATT
9868 TATTAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (24 bp):
CTCGTTTATAAGCTCGTTTATTAA
Found at i:9990 original size:24 final size:23
Alignment explanation
Indices: 9963--10089 Score: 121
Period size: 23 Copynumber: 5.5 Consensus size: 23
9953 ACATTGTTCG
* *
9963 TGAACGTGTTCAATTATATATTCA
1 TGAACATGTTCGATTA-ATATTCA
* *
9987 TGAACATGTTCGTTTAATATTCG
1 TGAACATGTTCGATTAATATTCA
* *
10010 TGAACATGTTCGATTAATGTTCG
1 TGAACATGTTCGATTAATATTCA
* * *
10033 TGAAGATGTTCGATTAATGTTCG
1 TGAACATGTTCGATTAATATTCA
* **
10056 TGAACATGTTTGATTAAGT-TAAA
1 TGAACATGTTCGATTAA-TATTCA
10079 TGAACATGTTC
1 TGAACATGTTC
10090 ATGAACATTA
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
23 75 0.84
24 14 0.16
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAATATTCA
Found at i:10013 original size:23 final size:23
Alignment explanation
Indices: 9959--10072 Score: 147
Period size: 23 Copynumber: 4.9 Consensus size: 23
9949 ATTAACATTG
* *
9959 TTCGTGAACGTGTTCAATTATATA
1 TTCGTGAACATGTTCGATTA-ATA
* *
9983 TTCATGAACATGTTCGTTTAATA
1 TTCGTGAACATGTTCGATTAATA
*
10006 TTCGTGAACATGTTCGATTAATG
1 TTCGTGAACATGTTCGATTAATA
* *
10029 TTCGTGAAGATGTTCGATTAATG
1 TTCGTGAACATGTTCGATTAATA
*
10052 TTCGTGAACATGTTTGATTAA
1 TTCGTGAACATGTTCGATTAA
10073 GTTAAATGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
23 64 0.80
24 16 0.20
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (23 bp):
TTCGTGAACATGTTCGATTAATA
Found at i:10056 original size:46 final size:46
Alignment explanation
Indices: 9957--10089 Score: 151
Period size: 46 Copynumber: 2.9 Consensus size: 46
9947 TCATTAACAT
* * *
9957 TGTTCGTGAACGTGTTCAATTATATATTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTA-ATATTCATGAACATGTTCGATTAA
* * * *
10004 TATTCGTGAACATGTTCGATTAATGTTCGTGAAGATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAATATTCATGAACATGTTCGATTAA
* **
10050 TGTTCGTGAACATGTTTGATTAAGT-TAAATGAACATGTTC
1 TGTTCGTGAACATGTTCGATTAA-TATTCATGAACATGTTC
10090 ATGAACATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
46 52 0.72
47 20 0.28
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (46 bp):
TGTTCGTGAACATGTTCGATTAATATTCATGAACATGTTCGATTAA
Found at i:12560 original size:16 final size:16
Alignment explanation
Indices: 12533--12573 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
12523 TTTTGGTGAA
**
12533 TAATTCTTTCAATTTTT
1 TAATT-TTTCAAAATTT
12550 TAATTTTTCAAAATTT
1 TAATTTTTCAAAATTT
12566 TAATTTTT
1 TAATTTTT
12574 TTATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATTTTTCAAAATTT
Found at i:12574 original size:17 final size:17
Alignment explanation
Indices: 12533--12584 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
12523 TTTTGGTGAA
* **
12533 TAATTCTTTCAATTTTT
1 TAATTTTTTCAAAATTT
12550 TAA-TTTTTCAAAATTT
1 TAATTTTTTCAAAATTT
* *
12566 TAATTTTTTTATAATTT
1 TAATTTTTTCAAAATTT
12583 TA
1 TA
12585 GATAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TAATTTTTTCAAAATTT
Found at i:13629 original size:17 final size:17
Alignment explanation
Indices: 13609--13663 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
13599 TATAACTCAA
13609 AAATAT-ATTTAATTTTT
1 AAATATAATTT-ATTTTT
*
13626 AAAT-TAATTTATTATT
1 AAATATAATTTATTTTT
13642 AAA-ATAATTT-TTTTT
1 AAATATAATTTATTTTT
*
13657 GAATATA
1 AAATATA
13664 TTGATGCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 6 0.19
16 18 0.56
17 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATATAATTTATTTTT
Found at i:14450 original size:3 final size:3
Alignment explanation
Indices: 14442--14467 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14432 AATGGACCAA
14442 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
14468 ATTGTTTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19945 original size:17 final size:17
Alignment explanation
Indices: 19923--19965 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19913 TCAACAAATC
19923 ATTTAATTTAAATTTAA
1 ATTTAATTTAAATTTAA
* * *
19940 ATTTAATATAATTTTAT
1 ATTTAATTTAAATTTAA
*
19957 TTTTAATTT
1 ATTTAATTT
19966 TTTCTAACGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTAATTTAAATTTAA
Found at i:21551 original size:17 final size:17
Alignment explanation
Indices: 21529--21568 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
21519 CACGTTTTAA
21529 TTATTTAAGAAAAGATT
1 TTATTTAAGAAAAGATT
21546 TTATTTAAGAAAAGATT
1 TTATTTAAGAAAAGATT
21563 TT-TTTA
1 TTATTTA
21569 TTTTTTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (17 bp):
TTATTTAAGAAAAGATT
Found at i:22135 original size:30 final size:31
Alignment explanation
Indices: 22100--22184 Score: 90
Period size: 30 Copynumber: 2.8 Consensus size: 31
22090 TGCTTCAAGT
*
22100 TTTTATTTTTTTATATATTTAAAATTTGA-TC
1 TTTTATTTTTTTA-ATATTTAAAATTTAATTC
*
22131 -TTTA-TATTTTAAT-TTTAATAATTTAATTC
1 TTTTATTTTTTTAATATTTAA-AATTTAATTC
*
22160 TTTTATTTTTTTGA-ATTTAAAATTT
1 TTTTATTTTTTTAATATTTAAAATTT
22185 TAAGTTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
27 5 0.11
28 8 0.18
29 8 0.18
30 13 0.29
31 11 0.24
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (31 bp):
TTTTATTTTTTTAATATTTAAAATTTAATTC
Found at i:22154 original size:28 final size:29
Alignment explanation
Indices: 22108--22168 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
22098 GTTTTTATTT
*
22108 TTTTATATATTTAAAATTTGA-TCTTTATA
1 TTTTATATATTTAAAATTTAATTCTTT-TA
22137 TTTTA-AT-TTTAATAATTTAATTCTTTTA
1 TTTTATATATTTAA-AATTTAATTCTTTTA
22165 TTTT
1 TTTT
22169 TTTGAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.17
28 14 0.48
29 10 0.34
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTATATATTTAAAATTTAATTCTTTTA
Found at i:26659 original size:18 final size:19
Alignment explanation
Indices: 26636--26677 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
26626 TTTCGGATAA
* *
26636 AATCGAAT-TAATTCGGTT
1 AATCGAATCAAATTCGATT
26654 AATCG-ATCAAATTCGATT
1 AATCGAATCAAATTCGATT
26672 AATCGA
1 AATCGA
26678 TCAGTTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AATCGAATCAAATTCGATT
Found at i:26678 original size:18 final size:18
Alignment explanation
Indices: 26645--26680 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26635 AAATCGAATT
*
26645 AATTCGGTTAATCGATCA
1 AATTCGATTAATCGATCA
26663 AATTCGATTAATCGATCA
1 AATTCGATTAATCGATCA
26681 GTTAATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
AATTCGATTAATCGATCA
Found at i:36819 original size:26 final size:26
Alignment explanation
Indices: 36756--36823 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
36746 GTAAATATAA
36756 CTCAT-ACGAGCTCAGTAAGTAAATTG
1 CTCATCACGAGC-CAGTAAGTAAATTG
*
36782 CTCATTCA--AGCCAGTACAGTATATTG
1 CTCA-TCACGAGCCAGTA-AGTAAATTG
36808 CTC-TCACGAGCCAGTA
1 CTCATCACGAGCCAGTA
36824 TTTGCTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 3 0.08
25 5 0.14
26 26 0.72
27 1 0.03
28 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (26 bp):
CTCATCACGAGCCAGTAAGTAAATTG
Found at i:36834 original size:20 final size:20
Alignment explanation
Indices: 36798--36845 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36788 CAAGCCAGTA
* *
36798 CAGTATATTGCTCTCACGAGC
1 CAGTAT-TTGCTATCACAAGC
36819 CAGTATTTGCTATCACAAGC
1 CAGTATTTGCTATCACAAGC
*
36839 GAGTATT
1 CAGTATT
36846 GCTCTTACGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (20 bp):
CAGTATTTGCTATCACAAGC
Found at i:46145 original size:23 final size:23
Alignment explanation
Indices: 46075--46146 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
46065 TGCAAACAAA
*
46075 ACAAATATAGATACAATTCAGAT
1 ACAAATATAGATGCAATTCAGAT
* * * * *
46098 ATAGATACAGATGCAACTCACAT
1 ACAAATATAGATGCAATTCAGAT
*
46121 ACAAATATAGATGCAATTTAGAT
1 ACAAATATAGATGCAATTCAGAT
46144 ACA
1 ACA
46147 TATACATATT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (23 bp):
ACAAATATAGATGCAATTCAGAT
Found at i:56426 original size:21 final size:21
Alignment explanation
Indices: 56402--56441 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56392 ATAAATGAGT
56402 TTAATCAAGATTAAAGATGTG
1 TTAATCAAGATTAAAGATGTG
* * *
56423 TTAATTAAGCTTAATGATG
1 TTAATCAAGATTAAAGATG
56442 AAAGTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
TTAATCAAGATTAAAGATGTG
Found at i:59618 original size:52 final size:52
Alignment explanation
Indices: 59533--59762 Score: 325
Period size: 52 Copynumber: 4.4 Consensus size: 52
59523 GTAAACGAAA
* * *
59533 AGGTCCGATGACTAAGTGTCATTGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
* * *
59585 GGGTTCAATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
* * * *
59637 AGGTCCGATGACTAAGTGTTATTGTGAGTACATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
* *
59689 AGGTCCGATGACTAAGTGTCGTCATGAGTATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
** *
59741 AGGTGTGATGACTATGTGTCAT
1 AGGTCCGATGACTAAGTGTCAT
59763 CGTGCGTATT
Statistics
Matches: 155, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 155 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTAAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
Found at i:59716 original size:104 final size:104
Alignment explanation
Indices: 59533--59762 Score: 361
Period size: 104 Copynumber: 2.2 Consensus size: 104
59523 GTAAACGAAA
* * * *
59533 AGGTCCGATGACTAAGTGTCATTGTGAGTATATGAATCCTTTATGGATTATGGGGTTCAATGACT
1 AGGTCCGATGACTAAGTGTCATTGTGAGTACATGAATCCTTTACGGATTATGAGGTCCAATGACT
*
59598 AAGTGTCATTATGAGTATATGAATCCTTTACGAATTATG
66 AAGTGTCATCATGAGTATATGAATCCTTTACGAATTATG
* *
59637 AGGTCCGATGACTAAGTGTTATTGTGAGTACATGAATCCTTTACGGATTATGAGGTCCGATGACT
1 AGGTCCGATGACTAAGTGTCATTGTGAGTACATGAATCCTTTACGGATTATGAGGTCCAATGACT
*
59702 AAGTGTCGTCATGAGTATATGAATCCTTTACGAATTATG
66 AAGTGTCATCATGAGTATATGAATCCTTTACGAATTATG
** *
59741 AGGTGTGATGACTATGTGTCAT
1 AGGTCCGATGACTAAGTGTCAT
59763 CGTGCGTATT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
104 114 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (104 bp):
AGGTCCGATGACTAAGTGTCATTGTGAGTACATGAATCCTTTACGGATTATGAGGTCCAATGACT
AAGTGTCATCATGAGTATATGAATCCTTTACGAATTATG
Found at i:61411 original size:18 final size:18
Alignment explanation
Indices: 61390--61463 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
61380 CTACATATGT
61390 GAGCTCA-TCTAAAGTTGC
1 GAGCTCATTC-AAAGTTGC
61408 GAGCTCATTCAAAGTTGC
1 GAGCTCATTCAAAGTTGC
* *
61426 AAGCTCATTCAAAGATGC
1 GAGCTCATTCAAAGTTGC
*
61444 GAGCTC-TTCAAAGTTAC
1 GAGCTCATTCAAAGTTGC
61461 GAG
1 GAG
61464 GTCAACCAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.24
18 36 0.72
19 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (18 bp):
GAGCTCATTCAAAGTTGC
Found at i:61463 original size:17 final size:17
Alignment explanation
Indices: 61390--61491 Score: 96
Period size: 18 Copynumber: 5.8 Consensus size: 17
61380 CTACATATGT
61390 GAGCTCATCTAAAGTTGC
1 GAGCTCATC-AAAGTTGC
61408 GAGCTCATTCAAAGTTGC
1 GAGCTCA-TCAAAGTTGC
* *
61426 AAGCTCATTCAAAGATGC
1 GAGCTCA-TCAAAGTTGC
* *
61444 GAGCTCTTCAAAGTTAC
1 GAGCTCATCAAAGTTGC
* * * *
61461 GAGGTCAACCAAGTTAC
1 GAGCTCATCAAAGTTGC
*
61478 GAACTCATCAAAGT
1 GAGCTCATCAAAGT
61492 GTGAGTTATT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
17 31 0.45
18 36 0.52
19 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (17 bp):
GAGCTCATCAAAGTTGC
Found at i:62986 original size:22 final size:21
Alignment explanation
Indices: 62947--62987 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
62937 TATTTGAAAG
**
62947 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGGAAAATCT
62968 ATAAAAACATAAGGGAAAAT
1 ATAAAAAC-TAAGGGAAAAT
62988 ACTTGATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGGAAAATCT
Found at i:67314 original size:17 final size:18
Alignment explanation
Indices: 67244--67325 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
67234 AGCTCTACAT
67244 CTGCGAGCTCA-TCAGAAG
1 CTGCGAGCTCATTCA-AAG
* *
67262 CTGCGAACTTATTCAAAG
1 CTGCGAGCTCATTCAAAG
* * *
67280 TTACAAGCTCATTCAAAG
1 CTGCGAGCTCATTCAAAG
*
67298 ATGCGAGCTCA-TCAAAG
1 CTGCGAGCTCATTCAAAG
*
67315 CTACGAGCTCA
1 CTGCGAGCTCA
67326 ACCAAGTTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 15 0.29
18 33 0.65
19 3 0.06
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (18 bp):
CTGCGAGCTCATTCAAAG
Found at i:73748 original size:25 final size:25
Alignment explanation
Indices: 73719--73784 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
73709 TAATATTTAT
73719 TATTATATTATATTTGACTCATAAA
1 TATTATATTATATTTGACTCATAAA
* **
73744 TATTATACTATATTTGACTTGTAAA
1 TATTATATTATATTTGACTCATAAA
*
73769 TATTATTTTAATATTT
1 TATTATATT-ATATTT
73785 ATGAACCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (25 bp):
TATTATATTATATTTGACTCATAAA
Found at i:78507 original size:42 final size:42
Alignment explanation
Indices: 78356--78747 Score: 342
Period size: 42 Copynumber: 9.5 Consensus size: 42
78346 ATACGTATTA
* * ** *
78356 AAGGAAGACTCGTGTCTCG-GAACGAGCATGAGGGTAT-ATTA
1 AAGGAAGACTCATGACTCGAGAA-GAGCATGAGATTATGATTT
* * *
78397 AAGGAAGACTCGTGTCTCGAGAAGAGCATGAGATTATG-TTAAA
1 AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATT--T
* * * *
78440 AAGGAATACTCGTGACTTGAGAAGAGCATGAGATTTTGATTT
1 AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
* * *
78482 AAGGAAGACTCATGACTCGAAAAGAGTATGAGGTTATG-TTT
1 AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
** * * *
78523 AAAGGAAGACTTGTGACTCAAAAAGAGCATGAGATTTTGATTT
1 -AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
* *
78566 AAGGAAGACTCATGACTCG-GAAAGAGTATGAGGTTATG-TTT
1 AAGGAAGACTCATGACTCGAG-AAGAGCATGAGATTATGATTT
* *
78607 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTT
1 -AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
* * *
78650 ----AAGACTCATGACTCGGGAA-AGTATGAGGTTATG-TTT
1 AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
** *
78686 AAAGGAAGACTCATGACTCGAGATCAGCATGAGATTA-CATTT
1 -AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
*
78728 AAAGGAAGACTTATGACTCG
1 -AAGGAAGACTCATGACTCG
78748 GTTGATCATG
Statistics
Matches: 291, Mismatches: 42, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
36 3 0.01
37 11 0.04
38 17 0.06
41 56 0.19
42 160 0.55
43 42 0.14
44 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (42 bp):
AAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGATTT
Found at i:78553 original size:84 final size:84
Alignment explanation
Indices: 78353--78747 Score: 482
Period size: 84 Copynumber: 4.8 Consensus size: 84
78343 TTGATACGTA
* ** * * * *
78353 TTAAAGGAAGACTCGTGTCTCG-GAACGAGCATGAGGGTAT-ATTAAAGGAAGACTCGTGTCTCG
1 TTAAAGGAAGACTCGTGACTCGAGAA-GAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCG
* * *
78416 AGAAGAGCATGAGATTATGT
65 AAAAGAGTATGAGGTTATGT
* * *
78436 TAAAAAGGAATACTCGTGACTTGAGAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCG
1 T-TAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCG
78501 AAAAGAGTATGAGGTTATGT
65 AAAAGAGTATGAGGTTATGT
* * * *
78521 TTAAAGGAAGACTTGTGACTCAAAAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCGG
1 TTAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCGA
78586 AAAGAGTATGAGGTTATGT
66 AAAGAGTATGAGGTTATGT
*
78605 TTAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTT----AAGACTCATGACTCGG
1 TTAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCGA
*
78666 GAA-AGTATGAGGTTATGT
66 AAAGAGTATGAGGTTATGT
* ** ** *
78684 TTAAAGGAAGACTCATGACTCGAGATCAGCATGAGA-TTACATTTAAAGGAAGACTTATGACTCG
1 TTAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTT-AAGGAAGACTCATGACTCG
78748 GTTGATCATG
Statistics
Matches: 274, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
78 6 0.02
79 48 0.18
80 18 0.07
83 15 0.05
84 146 0.53
85 41 0.15
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (84 bp):
TTAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTTTGATTTAAGGAAGACTCATGACTCGA
AAAGAGTATGAGGTTATGT
Found at i:85516 original size:41 final size:41
Alignment explanation
Indices: 85451--85530 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
85441 AACACTTGAT
* * *
85451 GCATATTAAAGGAAGGTCCATGTCTCGGGACGAGCATGAGG
1 GCATATTAAAGGAAGCTCCATGTCTCGAGAAGAGCATGAGG
*
85492 GCATATTAAAGGAAGACT-CGTGTCTCGAGAAGAGCATGA
1 GCATATTAAAGGAAG-CTCCATGTCTCGAGAAGAGCATGA
85531 TATTATGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (41 bp):
GCATATTAAAGGAAGCTCCATGTCTCGAGAAGAGCATGAGG
Found at i:85542 original size:41 final size:42
Alignment explanation
Indices: 85497--85768 Score: 273
Period size: 42 Copynumber: 6.5 Consensus size: 42
85487 TGAGGGCATA
* * *
85497 TTAAAGGAAGACTCGTGTCTCGAGAAGAGCATGATATTATGT
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGT
* * * * *
85539 TAAAAAGGAAGACTCACGACTCAATAAGAGCATGAGATTTTGAT
1 T-TAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG-T
* * * *
85583 TT-AAGGAAGACTCATGACACGGGAAGAGTATGAGGTTATGT
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGT
** *
85624 TTAAAGGAA-ACTTGTGACTCGAGAAGAGCATGAGATTTTGAT
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG-T
* * * *
85666 TT-AAGAAAGACTCATGACTCG-GGAGAGTATGAGGTTATGT
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGT
* * * *
85706 TTAAAGGAAGACTCGTGGCTCGAGATGAGCATGAGATTACGT
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGT
*
85748 TTAAAGGAAGACTTATGACTC
1 TTAAAGGAAGACTCATGACTC
85769 AGTTTATCAT
Statistics
Matches: 181, Mismatches: 42, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
40 3 0.02
41 62 0.34
42 82 0.45
43 32 0.18
44 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (42 bp):
TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATGT
Found at i:85767 original size:83 final size:83
Alignment explanation
Indices: 85500--85768 Score: 317
Period size: 83 Copynumber: 3.2 Consensus size: 83
85490 GGGCATATTA
* * * * ** * ** * *
85500 AAGGAAGACTCGTGTCTCGAGAAGAGCATGATATTATGTTAAAAAGGAAGACTCACGACTCAATA
1 AAGGAAGACTCATGACTCGGGAAGAGTATGAGGTTATGTT-TAAAGGAA-ACTCGTGACTCGAGA
85565 AGAGCATGAGATTTTGATTT
64 AGAGCATGAGATTTTGATTT
* *
85585 AAGGAAGACTCATGACACGGGAAGAGTATGAGGTTATGTTTAAAGGAAACTTGTGACTCGAGAAG
1 AAGGAAGACTCATGACTCGGGAAGAGTATGAGGTTATGTTTAAAGGAAACTCGTGACTCGAGAAG
85650 AGCATGAGATTTTGATTT
66 AGCATGAGATTTTGATTT
* * *
85668 AAGAAAGACTCATGACTCGGG-AGAGTATGAGGTTATGTTTAAAGGAAGACTCGTGGCTCGAGAT
1 AAGGAAGACTCATGACTCGGGAAGAGTATGAGGTTATGTTTAAAGGAA-ACTCGTGACTCGAGAA
**
85732 GAGCATGAGATTACG-TTT
65 GAGCATGAGATTTTGATTT
*
85750 AAAGGAAGACTTATGACTC
1 -AAGGAAGACTCATGACTC
85769 AGTTTATCAT
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
82 29 0.18
83 91 0.57
84 7 0.04
85 33 0.21
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (83 bp):
AAGGAAGACTCATGACTCGGGAAGAGTATGAGGTTATGTTTAAAGGAAACTCGTGACTCGAGAAG
AGCATGAGATTTTGATTT
Found at i:87363 original size:37 final size:37
Alignment explanation
Indices: 87307--87399 Score: 123
Period size: 37 Copynumber: 2.5 Consensus size: 37
87297 ACAAAGTCTG
* * * *
87307 CTAGGCACATAACCCGAATACATCGACACGAAGCCTA
1 CTAGGCACACAACCTGAATACACCGACACGAAACCTA
* *
87344 CTAGGCCCACAACCTGAATACACCGACACGAAACCTG
1 CTAGGCACACAACCTGAATACACCGACACGAAACCTA
*
87381 CTAGGCACACAGCCTGAAT
1 CTAGGCACACAACCTGAAT
87400 TTATAGATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.35, C:0.34, G:0.17, T:0.13
Consensus pattern (37 bp):
CTAGGCACACAACCTGAATACACCGACACGAAACCTA
Found at i:93324 original size:44 final size:44
Alignment explanation
Indices: 93275--93362 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
93265 TCTTTTATCT
* *
93275 AAATAAAGCATTTTAAATTGATCAAGAGTCCCCACACTATCATC
1 AAATAAAACATTTCAAATTGATCAAGAGTCCCCACACTATCATC
93319 AAATAAAACATTTCAAATTGATCAAGAGTCCCCACACTATCATC
1 AAATAAAACATTTCAAATTGATCAAGAGTCCCCACACTATCATC
93363 GATTATAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAAAACATTTCAAATTGATCAAGAGTCCCCACACTATCATC
Found at i:94795 original size:37 final size:37
Alignment explanation
Indices: 94706--94795 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
94696 AAGCTTGCTG
94706 GGCACACAGCCTGAATACACCGGCACGAAGCCTACTA
1 GGCACACAGCCTGAATACACCGGCACGAAGCCTACTA
* * *
94743 GGTACATAGCTTGAATACACCGGCACGAAGCCTACTA
1 GGCACACAGCCTGAATACACCGGCACGAAGCCTACTA
*
94780 GGCACACAACCTGAAT
1 GGCACACAGCCTGAAT
94796 TTATAGATGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.14
Consensus pattern (37 bp):
GGCACACAGCCTGAATACACCGGCACGAAGCCTACTA
Found at i:101011 original size:23 final size:22
Alignment explanation
Indices: 100968--101011 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
100958 ATCAGAGATG
100968 AGGTTCAACATTTTGAATCGATT
1 AGGTTCAACATTTTG-ATCGATT
100991 AGGTTCGAACATGTTTG-TCGA
1 AGGTTC-AACAT-TTTGATCGA
101012 AAGTATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 10 0.53
24 5 0.26
25 4 0.21
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (22 bp):
AGGTTCAACATTTTGATCGATT
Found at i:106036 original size:6 final size:6
Alignment explanation
Indices: 106025--106088 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
106015 TAGTACATTT
* * *
106025 TTTTTA TTTTTA TTATCT- TTTTCA -TTTCA TTTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA
106073 TTTTT- TGTTTTA TTTT
1 TTTTTA T-TTTTA TTTT
106089 ATTATGCATT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 7 0.15
6 34 0.71
7 7 0.15
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:106088 original size:18 final size:17
Alignment explanation
Indices: 106022--106088 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
106012 ATATAGTACA
106022 TTTTTTTTATTTTTATT
1 TTTTTTTTATTTTTATT
* *
106039 ATCTTTTTCATTTCATT-TT
1 -TTTTTTTTATTT--TTATT
*
106058 TTATTTTTATTTTTATT
1 TTTTTTTTATTTTTATT
106075 TTTTGTTTTATTTT
1 TTTT-TTTTATTTT
106089 ATTATGCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.05
17 5 0.13
18 28 0.72
19 2 0.05
20 2 0.05
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTTTTATT
Found at i:107041 original size:15 final size:15
Alignment explanation
Indices: 107021--107058 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
107011 AAAAAAAGAG
107021 AAAAAAAAGTTGAAA
1 AAAAAAAAGTTGAAA
*
107036 AGAAAAAA-TTGAAA
1 AAAAAAAAGTTGAAA
107050 AAAAAAAAG
1 AAAAAAAAG
107059 AAAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (15 bp):
AAAAAAAAGTTGAAA
Found at i:108140 original size:23 final size:24
Alignment explanation
Indices: 108114--108159 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
108104 CCAATTAGGG
108114 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCT-TTTAGAATTTAATTCA
108137 AATTATCCTTTTAGAATTTAATT
1 AATTAT-CTTTTAGAATTTAATT
108160 TGGATCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (24 bp):
AATTATCTTTTAGAATTTAATTCA
Found at i:113275 original size:17 final size:17
Alignment explanation
Indices: 113245--113285 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
113235 AAACTAAAAG
113245 GAATGCAGTGACAATTAA
1 GAATGCAGTGACAA-TAA
113263 -AATGCAG-GCACAATAA
1 GAATGCAGTG-ACAATAA
113279 GAATGCA
1 GAATGCA
113286 TGAAAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (17 bp):
GAATGCAGTGACAATAA
Found at i:129123 original size:16 final size:16
Alignment explanation
Indices: 129102--129132 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
129092 GTGAGTGGGG
129102 AAGAGAAATGTTTTCA
1 AAGAGAAATGTTTTCA
*
129118 AAGAGAATTGTTTTC
1 AAGAGAAATGTTTTC
129133 TGTTTCGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
AAGAGAAATGTTTTCA
Found at i:140489 original size:7 final size:8
Alignment explanation
Indices: 140459--140487 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
140449 CATATCAAAG
140459 AAAAACAT
1 AAAAACAT
140467 AAAAACAT
1 AAAAACAT
140475 AAAAAC-T
1 AAAAACAT
140482 AAAAAC
1 AAAAAC
140488 TATATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.76, C:0.14, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAACAT
Found at i:145773 original size:173 final size:173
Alignment explanation
Indices: 145469--145813 Score: 564
Period size: 173 Copynumber: 2.0 Consensus size: 173
145459 ATATTCTCGT
*
145469 GCACTCAATCTACCTTATCGTTAGAGTGCTTGAAGTGAAATCGAAAGTAAACTCTGATACCACTT
1 GCACTCAATCAACCTTATCGTTAGAGTGCTTGAAGTGAAATCGAAAGTAAACTCTGATACCACTT
* * * * * *
145534 CTCATAAGACGTGATACTTTTGAGTTGTCCCATACACGCAGCTCTTGGGACGCTATGGAGCTAAA
66 CTCATAAGACATGACACTTTTGAGTTGTCCCAGACACGCAGCTATTGGGACGCTATGAAACTAAA
145599 CTTTGCAACCATGAGCTCTAAGGTAGGTAGGTGTATGTTTGGA
131 CTTTGCAACCATGAGCTCTAAGGTAGGTAGGTGTATGTTTGGA
*
145642 GCACTCAATCAACCTTATCGTTAGAGTGCTTGAAGTGAAATTGAAAGTAAACTCTGATACCACTT
1 GCACTCAATCAACCTTATCGTTAGAGTGCTTGAAGTGAAATCGAAAGTAAACTCTGATACCACTT
* * * *
145707 CTCATAGGACATGACACTTTTGAGTTGTTCCAGACACGCAGCTATTGGGACTCTGTGAAACTAAA
66 CTCATAAGACATGACACTTTTGAGTTGTCCCAGACACGCAGCTATTGGGACGCTATGAAACTAAA
* *
145772 CTTTGCAACTATGAGGTCTAAGGTAGGTAGGTGTATGTTTGG
131 CTTTGCAACCATGAGCTCTAAGGTAGGTAGGTGTATGTTTGG
145814 TGAAGATCAT
Statistics
Matches: 158, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
173 158 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (173 bp):
GCACTCAATCAACCTTATCGTTAGAGTGCTTGAAGTGAAATCGAAAGTAAACTCTGATACCACTT
CTCATAAGACATGACACTTTTGAGTTGTCCCAGACACGCAGCTATTGGGACGCTATGAAACTAAA
CTTTGCAACCATGAGCTCTAAGGTAGGTAGGTGTATGTTTGGA
Found at i:147329 original size:6 final size:6
Alignment explanation
Indices: 147318--147345 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
147308 AAAATAGATT
147318 GGGATG GGGATG GGGATG GGGATG GGGA
1 GGGATG GGGATG GGGATG GGGATG GGGA
147346 AAGGGAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.68, T:0.14
Consensus pattern (6 bp):
GGGATG
Found at i:150979 original size:20 final size:19
Alignment explanation
Indices: 150944--150981 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
150934 AATTTGATTA
*
150944 TTATTATTATTTTAATATT
1 TTATTATTATTATAATATT
150963 TTATTAGTTATTATAATAT
1 TTATTA-TTATTATAATAT
150982 CAAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTATTATTATTATAATATT
Found at i:156487 original size:52 final size:52
Alignment explanation
Indices: 156426--156558 Score: 221
Period size: 52 Copynumber: 2.6 Consensus size: 52
156416 GGAATCCTAC
156426 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAT
* *
156478 GCTCACGATGACATATAGTCATCGGACCTCATAATCCATAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAT
* * *
156530 ATTCATGATGACACATAGCCATCGGACCT
1 ACTCACGATGACACATAGTCATCGGACCT
156559 TTTTGTATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (52 bp):
ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCATAT
Found at i:165373 original size:14 final size:13
Alignment explanation
Indices: 165328--165370 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
165318 TTATAGCAAA
165328 CTTTT-TTTC-TT
1 CTTTTCTTTCTTT
*
165339 CTTTTCTTTTCTAT
1 CTTTTC-TTTCTTT
165353 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
165366 CTTTT
1 CTTTT
165371 TCTCATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:171215 original size:45 final size:45
Alignment explanation
Indices: 171151--171241 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
171141 GCTTCAACTC
171151 CAAGGTAGGAACTTGTTCAATCGACTGTTTAAACACATGGATCGT
1 CAAGGTAGGAACTTGTTCAATCGACTGTTTAAACACATGGATCGT
* *
171196 CAAGGTAGGAGCTTGTTCAATCGACTGTTTAAACACGTGGATCGT
1 CAAGGTAGGAACTTGTTCAATCGACTGTTTAAACACATGGATCGT
171241 C
1 C
171242 CTATTAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
CAAGGTAGGAACTTGTTCAATCGACTGTTTAAACACATGGATCGT
Found at i:188034 original size:36 final size:36
Alignment explanation
Indices: 187987--188062 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
187977 ACCGCCACAA
187987 AAAGAGAAAGGCGAGCGCCCAAAGAAAAAGAAGAAG
1 AAAGAGAAAGGCGAGCGCCCAAAGAAAAAGAAGAAG
188023 AAAGAGAAAGGCGAGCGCCCAAAGAAAAAGAAGAAG
1 AAAGAGAAAGGCGAGCGCCCAAAGAAAAAGAAGAAG
188059 AAAG
1 AAAG
188063 CCAAGGCAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.57, C:0.13, G:0.30, T:0.00
Consensus pattern (36 bp):
AAAGAGAAAGGCGAGCGCCCAAAGAAAAAGAAGAAG
Found at i:188769 original size:10 final size:11
Alignment explanation
Indices: 188756--188801 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
188746 AAAAAATCAC
188756 AAAAAG-AAAG
1 AAAAAGAAAAG
188766 AAAAAG-AAAG
1 AAAAAGAAAAG
* *
188776 AAGAGGAAAAG
1 AAAAAGAAAAG
188787 AGAAAAGAAAAG
1 A-AAAAGAAAAG
188799 AAA
1 AAA
188802 TATATTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 14 0.47
11 7 0.23
12 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:195217 original size:17 final size:17
Alignment explanation
Indices: 195197--195235 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
195187 ACTACAATGC
*
195197 AAATGCGTCGACAAATA
1 AAATGCATCGACAAATA
* *
195214 AAATGCATGGACAATTA
1 AAATGCATCGACAAATA
195231 AAATG
1 AAATG
195236 TGATGACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (17 bp):
AAATGCATCGACAAATA
Found at i:195682 original size:12 final size:13
Alignment explanation
Indices: 195667--195719 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
195657 CTTCCTACTC
195667 TCCTTCTTT-TCT
1 TCCTTCTTTCTCT
*
195679 TCCTTCCTTTTTC-
1 TCCTT-CTTTCTCT
195692 TCC-TCTTTCTCT
1 TCCTTCTTTCTCT
195704 T-CTTCTTTCTCT
1 TCCTTCTTTCTCT
195716 TCCT
1 TCCT
195720 CAATACCCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.20
12 17 0.49
13 9 0.26
14 2 0.06
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TCCTTCTTTCTCT
Found at i:199908 original size:33 final size:33
Alignment explanation
Indices: 199866--199934 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
199856 TCTTTCAACA
* *
199866 CAATTGCAATCTAGTTATAGCCATAATTACCAT
1 CAATTGCAATCTAGTTATAGCCAGAATAACCAT
* *
199899 CAATTGCAATCTGGTTGTAGCCAGAATAACCAT
1 CAATTGCAATCTAGTTATAGCCAGAATAACCAT
199932 CAA
1 CAA
199935 GGAAACAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (33 bp):
CAATTGCAATCTAGTTATAGCCAGAATAACCAT
Found at i:200722 original size:13 final size:13
Alignment explanation
Indices: 200704--200730 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
200694 ATCAATATGG
200704 TGACATTCCTCTT
1 TGACATTCCTCTT
200717 TGACATTCCTCTT
1 TGACATTCCTCTT
200730 T
1 T
200731 ACTCTTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.07, T:0.48
Consensus pattern (13 bp):
TGACATTCCTCTT
Found at i:203528 original size:22 final size:22
Alignment explanation
Indices: 203500--203549 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
203490 TTAATTTGTC
*
203500 ACTGCACTTACCAGTGTCAGTA
1 ACTGCACTTACCAGTGTCAGCA
*
203522 ACTGCACTTTCCAGTGTCAGCA
1 ACTGCACTTACCAGTGTCAGCA
203544 ACTGCA
1 ACTGCA
203550 ATAGCACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (22 bp):
ACTGCACTTACCAGTGTCAGCA
Found at i:215316 original size:21 final size:21
Alignment explanation
Indices: 215292--215341 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
215282 CCTATGACAG
* *
215292 TTCTACCGATACAAGTAAAGC
1 TTCTACCGAAACAAATAAAGC
* *
215313 TTCTACCGAAACAAATCATGC
1 TTCTACCGAAACAAATAAAGC
215334 TTCTACCG
1 TTCTACCG
215342 GTACTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (21 bp):
TTCTACCGAAACAAATAAAGC
Found at i:218229 original size:45 final size:45
Alignment explanation
Indices: 218179--218270 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
218169 TGATGAGATT
218179 AAAAATTCTTTGAAAATTTAGGGCCTTTTGATAGCCAAATAAGTA
1 AAAAATTCTTTGAAAATTTAGGGCCTTTTGATAGCCAAATAAGTA
218224 AAAAATTCTTTGAAAATTTAGGGCCTTTTGATAGCCAAATAAGTA
1 AAAAATTCTTTGAAAATTTAGGGCCTTTTGATAGCCAAATAAGTA
218269 AA
1 AA
218271 TTAAGTATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (45 bp):
AAAAATTCTTTGAAAATTTAGGGCCTTTTGATAGCCAAATAAGTA
Found at i:222853 original size:25 final size:25
Alignment explanation
Indices: 222825--222875 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
222815 TAAATAAACA
222825 TGTTTCATCTGAAATAATATTTGAT
1 TGTTTCATCTGAAATAATATTTGAT
** *
222850 TGTTTGGTGTGAAATAATATTTGAT
1 TGTTTCATCTGAAATAATATTTGAT
222875 T
1 T
222876 TTGTTTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (25 bp):
TGTTTCATCTGAAATAATATTTGAT
Found at i:226085 original size:18 final size:18
Alignment explanation
Indices: 226062--226099 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
226052 TGAATTTTCG
226062 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
226080 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
226098 AA
1 AA
226100 AACTATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:226525 original size:5 final size:5
Alignment explanation
Indices: 226515--226545 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
226505 GAACAAATAT
226515 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
226546 ATTCTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:227880 original size:22 final size:23
Alignment explanation
Indices: 227824--227885 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
227814 AATTTTTATT
*
227824 AAAAA-TATAAAAAAT-TATAGA
1 AAAAATTATAAAATATATATAGA
*
227845 AAAACATTTTTAAAATATATATA-A
1 AAAA-A-TTATAAAATATATATAGA
227869 AAAAATTATAAAATATA
1 AAAAATTATAAAATATA
227886 AAAACATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 4 0.12
22 12 0.35
23 1 0.03
24 13 0.38
25 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATTATAAAATATATATAGA
Found at i:228099 original size:10 final size:10
Alignment explanation
Indices: 228084--228118 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
228074 TTTAAAATAA
228084 TTTTAATAGT
1 TTTTAATAGT
**
228094 TTTTAATAAA
1 TTTTAATAGT
228104 TTTTAATAGT
1 TTTTAATAGT
228114 TTTTA
1 TTTTA
228119 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TTTTAATAGT
Found at i:228117 original size:20 final size:21
Alignment explanation
Indices: 228072--228118 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
228062 TTTTTTCTAA
228072 TTTTTAAAATAATTTTAATAG
1 TTTTTAAAATAATTTTAATAG
*
228093 TTTTTAATA-AATTTTAATAG
1 TTTTTAAAATAATTTTAATAG
228113 TTTTTA
1 TTTTTA
228119 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTAAAATAATTTTAATAG
Found at i:234745 original size:2 final size:2
Alignment explanation
Indices: 234738--234762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
234728 AGTCTCTTTC
234738 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
234763 AGATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:235541 original size:30 final size:31
Alignment explanation
Indices: 235505--235564 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
235495 TTAATTCAGT
235505 GACTTAAAT-AAAACTTTCAAATAGTTTAAC
1 GACTTAAATAAAAACTTTCAAATAGTTTAAC
235535 GACTTAAATAAAAACTTTCAAATAGTTTAA
1 GACTTAAATAAAAACTTTCAAATAGTTTAA
235565 AGATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (31 bp):
GACTTAAATAAAAACTTTCAAATAGTTTAAC
Found at i:243431 original size:26 final size:27
Alignment explanation
Indices: 243394--243450 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
243384 TTAAATTAAA
*
243394 TAAAGAACAAATT-GAAGGAGCAAATT
1 TAAAGAACAAATTAAAAGGAGCAAATT
* *
243420 TAAA-AACGAAATTAAAAGGGGTAAATT
1 TAAAGAAC-AAATTAAAAGGAGCAAATT
243447 TAAA
1 TAAA
243451 CCCAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.12
26 9 0.35
27 14 0.54
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (27 bp):
TAAAGAACAAATTAAAAGGAGCAAATT
Found at i:244424 original size:16 final size:15
Alignment explanation
Indices: 244396--244429 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
244386 GTTTTAAACC
244396 TTTTTTTTGTTTATA
1 TTTTTTTTGTTTATA
*
244411 TTTTTATTTTTTTATA
1 TTTTT-TTTGTTTATA
244427 TTT
1 TTT
244430 ATGTGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTTTGTTTATA
Found at i:244491 original size:8 final size:8
Alignment explanation
Indices: 244478--244502 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
244468 TTTGTTTTTG
244478 TTTATATT
1 TTTATATT
244486 TTTATATT
1 TTTATATT
244494 TTTATATT
1 TTTATATT
244502 T
1 T
244503 ATGTGTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATATT
Found at i:244907 original size:18 final size:18
Alignment explanation
Indices: 244881--244923 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
244871 AGGAGAGATT
* * *
244881 TCTCAGGCAGAGGAAAGG
1 TCTCGGGCAAAGGAAACG
244899 TCTCGGGCAAAGGAAACG
1 TCTCGGGCAAAGGAAACG
244917 TCTCGGG
1 TCTCGGG
244924 AGTCGAAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.37, T:0.14
Consensus pattern (18 bp):
TCTCGGGCAAAGGAAACG
Found at i:245796 original size:79 final size:78
Alignment explanation
Indices: 245713--246683 Score: 794
Period size: 79 Copynumber: 12.2 Consensus size: 78
245703 CTCATGATTG
* * **
245713 GGGTAAGATATTTGATGGTTGCGATCTGCCCTGTGATCAGGGTAAGAGATCGGATGGTTTTCAAT
1 GGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAAT
*
245778 CTGCCCTATGATC
66 CTACCCTATGATC
* * *
245791 AGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGATCGGATGATTTTTAA
1 -GGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAA
*
245856 TCTACCCTCTGATC
65 TCTACCCTATGATC
* * * *
245870 GGGGTAAGAGATCGAATGGCTGCGATCTGCCCCATGATCAGGGTAAGATATCGGATGGTTTTCAA
1 -GGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAA
*
245935 TTTA-CCTCATGATC
65 TCTACCCT-ATGATC
** * *
245949 GAGGTAAGAGATTAGG-TGGTTATGATCTACCCCATGATTAGGGTAAGAGATCGGATGGTTTTCA
1 G-GGTAAGAGATT-GGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCA
246013 ATCTACCAC-ATGATC
64 ATCTACC-CTATGATC
* * * * *
246028 GGGGTAAGAGATCGGGTGGTTGCGATCTACCTCATGATCAAGGTAAGAGATCGGATGGTTTTCAA
1 -GGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAA
*
246093 TCTGTCCC-ATGATC
65 TCT-ACCCTATGATC
* * ** * *
246107 GAGGTAAGAGATTGGATGGTTGCGATCTGTCTCATGATTGGGGTAAGAGATCGAATGGTTTTTAA
1 G-GGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAA
* *
246172 TCTACCCTCTAATC
65 TCTACCCTATGATC
* * * * *
246186 GAAGTAAGAGATTGGATGGCTACAATCTGCCCCATGATC-GAGGTAAGAGATCGGATGGTTTTGA
1 G-GGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAG-GGTAAGAGATCGGATGGTTTTCA
246250 ATCTA-CCTCATGATC
64 ATCTACCCT-ATGATC
* *
246265 GAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTTTCAA
1 G-GGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAA
*
246330 TCTACCCCATGATC
65 TCTACCCTATGATC
* * * * * * * * *
246344 GGGGTAAGAGATCGGGTGGTTGTGAT-TAGCCCCATTATCGGGGTAAGATATCAGATGCTTTTTA
1 -GGGTAAGAGATTGGATGGTTGCGATCT-GCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCA
** * *
246408 AT-TTGCTTCATGATT
64 ATCTACCCT-ATGATC
* * * * ** * * **
246423 GAGGTAAGAGCTCGGATGGTTACGATCTGTCGTATGATCGGGGTAAGAGATCGAATTATCTTT-A
1 G-GGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGT-TTTCA
* * *
246487 ATCTACCTTCATAATTA
64 ATCTACCCT-ATGA-TC
* * * * * * * * * * *
246504 AGGTAAGAGATTGAATTGCCTT-CAATCTGCCTTCATAATTAAGGTAAGAGATTGGATTGTCTTC
1 GGGTAAGAGATTGGA-TG-GTTGCGATCTGCC-CCATGATCAGGGTAAGAGATCGGATGGTTTTC
* * *
246568 AATCTGCCCTCTGATT
63 AATCTACCCTATGATC
* * * * * * * *
246584 GAGGTAAAAGATTGGATGATGTCTTCAATCTGCCTCATGATCAGGGTAAGAGACTAGTA-CGTCT
1 G-GGTAAGAGATTGGATG--GT-TGCGATCTGCCCCATGATCAGGGTAAGAGA-TCGGATGGTTT
* *
246648 TCAATCTACCCCATGCTC
61 TCAATCTACCCTATGATC
246666 GAGGTAAGAGATTGGATG
1 G-GGTAAGAGATTGGATG
246684 ATATCTTTAA
Statistics
Matches: 725, Mismatches: 136, Indels: 59
0.79 0.15 0.06
Matches are distributed among these distances:
78 18 0.02
79 552 0.76
80 35 0.05
81 28 0.04
82 80 0.11
83 12 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (78 bp):
GGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGATGGTTTTCAAT
CTACCCTATGATC
Found at i:245912 original size:158 final size:159
Alignment explanation
Indices: 245702--246636 Score: 904
Period size: 158 Copynumber: 5.9 Consensus size: 159
245692 TTGTGATCTG
* * ** * **
245702 CCTCATGATTGGGGTAAGATATTTGATGGTTGCGATCTGCCCTGTGATCAGGGTAAGAGATCGGA
1 CCTC-TGATCGGGGTAAGAGATCGGATGGCTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGA
*
245767 TGGTTTTCAATCTGCCCT-ATGATC-AGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATC
65 TGGTTTTCAATCTGCCCTCATGATCGA-GGTAAGAGATTGGATGGTTACGATCTGCCCCATGATC
* *
245830 GGGGTAAGAGATCGGATGATTTTTAATCTAC
129 AGGGTAAGAGATCGGATGGTTTTTAATCTAC
* *
245861 CCTCTGATCGGGGTAAGAGATCGAATGGCTGCGATCTGCCCCATGATCAGGGTAAGATATCGGAT
1 CCTCTGATCGGGGTAAGAGATCGGATGGCTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
** * * *
245926 GGTTTTCAAT-TTACCTCATGATCGAGGTAAGAGATTAGG-TGGTTATGATCTACCCCATGATTA
66 GGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATT-GGATGGTTACGATCTGCCCCATGATCA
*
245989 GGGTAAGAGATCGGATGGTTTTCAATCTAC
130 GGGTAAGAGATCGGATGGTTTTTAATCTAC
* * * * * *
246019 CAC-ATGATCGGGGTAAGAGATCGGGTGGTTGCGATCTACCTCATGATCAAGGTAAGAGATCGGA
1 C-CTCTGATCGGGGTAAGAGATCGGATGGCTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGA
* * * * **
246083 TGGTTTTCAATCTGTCC-CATGATCGAGGTAAGAGATTGGATGGTTGCGATCTGTCTCATGATTG
65 TGGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCA
*
246147 GGGTAAGAGATCGAATGGTTTTTAATCTAC
130 GGGTAAGAGATCGGATGGTTTTTAATCTAC
* ** * * *
246177 CCTCTAATCGAAGTAAGAGATTGGATGGCTACAATCTGCCCCATGATC-GAGGTAAGAGATCGGA
1 CCTCTGATCGGGGTAAGAGATCGGATGGCTGCGATCTGCCCCATGATCAG-GGTAAGAGATCGGA
* *
246241 TGGTTTTGAATCT-ACCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCA
65 TGGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCA
* *
246305 GGGTAAGAGATTGGATGGTTTTCAATCTAC
130 GGGTAAGAGATCGGATGGTTTTTAATCTAC
* * * * * * *
246335 CC-CATGATCGGGGTAAGAGATCGGGTGGTTGTGAT-TAGCCCCATTATCGGGGTAAGATATCAG
1 CCTC-TGATCGGGGTAAGAGATCGGATGGCTGCGATCT-GCCCCATGATCAGGGTAAGAGATCGG
* * * * * * * * **
246398 ATGCTTTTTAATTTG-CTTCATGATTGAGGTAAGAGCTCGGATGGTTACGATCTGTCGTATGATC
64 ATGGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATC
* * ** *
246462 GGGGTAAGAGATCGAATTATCTTTAATCTAC
129 AGGGTAAGAGATCGGATGGTTTTTAATCTAC
* * *** * * * * * * * * * *
246493 CTTCATAATTAAGGTAAGAGATTGAATTGCCTTCAATCTGCCTTCATAATTAAGGTAAGAGATTG
1 CCTC-TGATCGGGGTAAGAGATCGGA-TGGCTGCGATCTGCC-CCATGATCAGGGTAAGAGATCG
* * * * * * *
246558 GATTGTCTTCAATCTGCCCTC-TGATTGAGGTAAAAGATTGGATGATGTCTTCAATCTGCCTCAT
63 GATGGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATTGGATG--GT-TACGATCTGCCCCAT
246622 GATCAGGGTAAGAGA
125 GATCAGGGTAAGAGA
246637 CTAGTACGTC
Statistics
Matches: 632, Mismatches: 123, Indels: 37
0.80 0.16 0.05
Matches are distributed among these distances:
157 11 0.02
158 510 0.81
159 28 0.04
160 8 0.01
161 46 0.07
162 3 0.00
163 2 0.00
164 24 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (159 bp):
CCTCTGATCGGGGTAAGAGATCGGATGGCTGCGATCTGCCCCATGATCAGGGTAAGAGATCGGAT
GGTTTTCAATCTGCCCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCAG
GGTAAGAGATCGGATGGTTTTTAATCTAC
Found at i:246462 original size:237 final size:237
Alignment explanation
Indices: 245702--246516 Score: 905
Period size: 237 Copynumber: 3.4 Consensus size: 237
245692 TTGTGATCTG
* * * ** * **
245702 CCTCATGATTGGGGTAAGATATTTGATGGTTGCGATCTGCCCTGTGATC-AGGGTAAGAGATCGG
1 CCTCATGATCGAGGTAAGAGATAGGATGGTTACGATCTGCCCCATGATCGAGGGTAAGAGATCGG
*
245766 ATGGTTTTCAATCTGCC-CTATGATC-AGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGAT
66 ATGGTTTTCAATCTACCTC-ATGATCGA-GGTAAGAGATTGGATGGTTGCGATCTGCCCCATGAT
* * * * *
245829 CGGGGTAAGAGATCGGATGATTTTTAATCTACCCTC-TGATCGGGGTAAGAGATCGAATGGCTGC
129 CAGGGTAAGAGATCGGATGGTTTTCAATCTACCC-CATGATCGGGGTAAGAGATCGGATGGTTGC
* *
245893 GATCTGCCCCATGATCAGGGTAAGATATCGGATGGTTTTCAATTTA
193 GATCTGCCCCATGATCGGGGTAAGATATC-GATGGTTTTTAATTTA
* * *
245939 CCTCATGATCGAGGTAAGAGATTAGG-TGGTTATGATCTACCCCATGAT-TAGGGTAAGAGATCG
1 CCTCATGATCGAGGTAAGAGA-TAGGATGGTTACGATCTGCCCCATGATCGAGGGTAAGAGATCG
* * * * * *
246002 GATGGTTTTCAATCTACCACATGATCGGGGTAAGAGATCGGGTGGTTGCGATCTACCTCATGATC
65 GATGGTTTTCAATCTACCTCATGATCGAGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATC
* ** * *
246067 AAGGTAAGAGATCGGATGGTTTTCAATCTGTCCCATGATCGAGGTAAGAGATTGGATGGTTGCGA
130 AGGGTAAGAGATCGGATGGTTTTCAATCTACCCCATGATCGGGGTAAGAGATCGGATGGTTGCGA
* * * * *
246132 TCTGTCTCATGATTGGGGTAAGAGATCGAATGGTTTTTAATCTA
195 TCTGCCCCATGATCGGGGTAAGATATCG-ATGGTTTTTAATTTA
* * * * *
246176 CCCTC-TAATCGAAGTAAGAGATTGGATGGCTACAATCTGCCCCATGATCGA-GGTAAGAGATCG
1 -CCTCATGATCGAGGTAAGAGATAGGATGGTTACGATCTGCCCCATGATCGAGGGTAAGAGATCG
* *
246239 GATGGTTTTGAATCTACCTCATGATCGAGGTAAGAGATTGGATGGTTACGATCTGCCCCATGATC
65 GATGGTTTTCAATCTACCTCATGATCGAGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATC
* * *
246304 AGGGTAAGAGATTGGATGGTTTTCAATCTACCCCATGATCGGGGTAAGAGATCGGGTGGTTGTGA
130 AGGGTAAGAGATCGGATGGTTTTCAATCTACCCCATGATCGGGGTAAGAGATCGGATGGTTGCGA
* * *
246369 T-TAGCCCCATTATCGGGGTAAGATATCAGATGCTTTTTAATTTG
195 TCT-GCCCCATGATCGGGGTAAGATATC-GATGGTTTTTAATTTA
* * * * * ** *
246413 CTTCATGATTGAGGTAAGAGCTCGGATGGTTACGATCTGTCGTATGATCG-GGGTAAGAGATCGA
1 CCTCATGATCGAGGTAAGAGATAGGATGGTTACGATCTGCCCCATGATCGAGGGTAAGAGATCGG
** * **
246477 ATTATCTTT-AATCTACCTTCATAATTAAGGTAAGAGATTG
66 ATGGT-TTTCAATCTACC-TCATGATCGAGGTAAGAGATTG
246517 AATTGCCTTC
Statistics
Matches: 481, Mismatches: 82, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
236 9 0.02
237 441 0.92
238 31 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (237 bp):
CCTCATGATCGAGGTAAGAGATAGGATGGTTACGATCTGCCCCATGATCGAGGGTAAGAGATCGG
ATGGTTTTCAATCTACCTCATGATCGAGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCA
GGGTAAGAGATCGGATGGTTTTCAATCTACCCCATGATCGGGGTAAGAGATCGGATGGTTGCGAT
CTGCCCCATGATCGGGGTAAGATATCGATGGTTTTTAATTTA
Found at i:246531 original size:41 final size:41
Alignment explanation
Indices: 246464--246636 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
246454 GTATGATCGG
* * *
246464 GGTAAGAGATCGAATTATCTTTAATCTACCTTCATAATTAA
1 GGTAAGAGATTGAATTGTCTTCAATCTACCTTCATAATTAA
* *
246505 GGTAAGAGATTGAATTGCCTTCAATCTGCCTTCATAATTAA
1 GGTAAGAGATTGAATTGTCTTCAATCTACCTTCATAATTAA
* * * * *
246546 GGTAAGAGATTGGATTGTCTTCAATCTGCCCTC-TGATTGA
1 GGTAAGAGATTGAATTGTCTTCAATCTACCTTCATAATTAA
* * * * * *
246586 GGTAAAAGATTGGATGATGTCTTCAATCTGCC-TCATGATCAG
1 GGTAAGAGATTGAAT--TGTCTTCAATCTACCTTCATAATTAA
246628 GGTAAGAGA
1 GGTAAGAGA
246637 CTAGTACGTC
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 19 0.17
41 68 0.60
42 27 0.24
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (41 bp):
GGTAAGAGATTGAATTGTCTTCAATCTACCTTCATAATTAA
Found at i:246632 original size:42 final size:42
Alignment explanation
Indices: 245746--246706 Score: 240
Period size: 40 Copynumber: 24.1 Consensus size: 42
245736 ATCTGCCCTG
* * *
245746 TGATCAG-GGTAAGAGATCGGAT-GGTTTTCAATCTGCC-CTA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTC-A
* * * *
245786 TGATCAG-GGTAAGAGATTGGAT-GGT-TGCGATCTGCCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * *
245825 TGATC-GGGGTAAGAGATCGGATGAT-T-TTTAATCTACCCTC-
1 TGATCAGAGGTAAGAGATTGGAT-ATGTCTTCAATCT-GCCTCA
* * * * * *
245865 TGATC-GGGGTAAGAGA-TCGA-ATGGCTGCGATCTGCCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * * *
245904 TGATCAG-GGTAAGATATCGGAT-GGTTTTCAATTTACCTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * *
245944 TGATC-GAGGTAAGAGATTAGG-T-GGT-TAT-GATCTACCCCA
1 TGATCAGAGGTAAGAGATT-GGATATGTCT-TCAATCTGCCTCA
* * * * * *
245983 TGATTAG-GGTAAGAGATCGGAT-GGTTTTCAATCTACCACA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * * * *
246023 TGATC-GGGGTAAGAGATCGGGT-GGT-TGCGATCTACCTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * *
246062 TGATCA-AGGTAAGAGATCGGAT-GGTTTTCAATCTGTCC-CA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTG-CCTCA
* * * *
246102 TGATC-GAGGTAAGAGATTGGAT-GGT-TGCGATCTGTCTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * * *
246141 TGAT-TGGGGTAAGAGA-TCGA-ATGGTTTTTAATCTACCCTC-
1 TGATCAGAGGTAAGAGATTGGATAT-GTCTTCAATCT-GCCTCA
* * * * *
246181 TAATC-GAAGTAAGAGATTGG--ATGGCTACAATCTGCCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * *
246220 TGATC-GAGGTAAGAGATCGGAT-GGTTTTGAATCTACCTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * *
246260 TGATC-GAGGTAAGAGATTGGAT-GGT-TACGATCTGCCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * *
246299 TGATCAG-GGTAAGAGATTGGAT-GGTTTTCAATCTACCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * * *
246339 TGATC-GGGGTAAGAGATCGGGT-GGT-TGT-GAT-TAGCCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCT-TCAATCT-GCCTCA
* * * * * * * * *
246378 TTATC-GGGGTAAGATA-T-CAGATGCTTTTTAATTTGCTTCA
1 TGATCAGAGGTAAGAGATTGGATATG-TCTTCAATCTGCCTCA
* * * * * * *
246418 TGAT-TGAGGTAAGAGCTCGGAT-GGT-TACGATCTGTCGT-A
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTG-CCTCA
* * * * * *
246457 TGATC-GGGGTAAGAGATCGAAT-TATCTTTAATCTACCTTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCC-TCA
* * * *
246498 TAATTA-AGGTAAGAGATTGAAT-TGCCTTCAATCTGCCTTCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCC-TCA
* *
246539 TAATTA-AGGTAAGAGATTGGAT-TGTCTTCAATCTGCCCTC-
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTG-CCTCA
* *
246579 TGAT-TGAGGTAAAAGATTGGATGATGTCTTCAATCTGCCTCA
1 TGATCAGAGGTAAGAGATTGGAT-ATGTCTTCAATCTGCCTCA
* * * * *
246621 TGATCAG-GGTAAGAGACTAG-TACGTCTTCAATCTACCCCA
1 TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
* * * * *
246661 TGCTC-GAGGTAAGAGATTGGATGATATCTTTAATTTTCCTCA
1 TGATCAGAGGTAAGAGATTGGAT-ATGTCTTCAATCTGCCTCA
246703 TGAT
1 TGAT
246707 TGGGGTAAGA
Statistics
Matches: 703, Mismatches: 156, Indels: 122
0.72 0.16 0.12
Matches are distributed among these distances:
37 2 0.00
38 15 0.02
39 245 0.35
40 306 0.44
41 88 0.13
42 46 0.07
43 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATCAGAGGTAAGAGATTGGATATGTCTTCAATCTGCCTCA
Found at i:246648 original size:82 final size:82
Alignment explanation
Indices: 246562--246717 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 82
246552 AGATTGGATT
* * *
246562 GTCTTCAATCTGCCCTC-TGATTGAGGTAAAAGATTGGATGATGTCTTCAATCTGCCTCATGATC
1 GTCTTCAATCTACCC-CATGATCGAGGTAAAAGATTGGATGATATCTTCAATCTGCCTCATGATC
246626 AGGGTAAGAGACTAGTAC
65 AGGGTAAGAGACTAGTAC
* * * * * **
246644 GTCTTCAATCTACCCCATGCTCGAGGTAAGAGATTGGATGATATCTTTAATTTTCCTCATGATTG
1 GTCTTCAATCTACCCCATGATCGAGGTAAAAGATTGGATGATATCTTCAATCTGCCTCATGATCA
246709 GGGTAAGAG
66 GGGTAAGAG
246718 GTTGGTGCGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.02
82 62 0.98
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (82 bp):
GTCTTCAATCTACCCCATGATCGAGGTAAAAGATTGGATGATATCTTCAATCTGCCTCATGATCA
GGGTAAGAGACTAGTAC
Found at i:246917 original size:49 final size:49
Alignment explanation
Indices: 246817--246917 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 49
246807 AGATTGGCCA
* * * *
246817 TTGCGGTCTTAATCTTTCCCTTCATATCTCTAAGGTATAAGGTTTGCCG
1 TTGCGGTCTTAATCTTTCCCTCCATATCTCTAAGGTACAAGATTTACCG
*
246866 TTGCGG-CTTCAA-CTTGTCCCTCCATATCT-TAATGGTACAAGATTTATCG
1 TTGCGGTCTT-AATCTT-TCCCTCCATATCTCTAA-GGTACAAGATTTACCG
246915 TTG
1 TTG
246918 TGGCCTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
48 9 0.20
49 35 0.80
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.40
Consensus pattern (49 bp):
TTGCGGTCTTAATCTTTCCCTCCATATCTCTAAGGTACAAGATTTACCG
Found at i:247070 original size:99 final size:96
Alignment explanation
Indices: 246967--247182 Score: 272
Period size: 99 Copynumber: 2.2 Consensus size: 96
246957 TTCGTCGTTG
*
246967 CGGCCTCAACCTTTCCCTTCATACCTTCAT-CGTATCGAATTCGTTGTTGCGGCCTCAATCCTTC
1 CGGCCTCAACCTTTCCCTTCATACCTTCATGC-TATCGAATTCGTCGTTGCGGCCTCAATCCTTC
* * *
247031 CTATCACATCTTTTAAGGTACATGGTTTGCCATTA
65 CCATCACATC---TAAGGTACAAGGCTTGCCATTA
* * * *
247066 CGGCCTCAACCTTTCCCTTCATATCTTTATGCTATCGGATTCGTCGTTGCGGCCTCAATCTTTCC
1 CGGCCTCAACCTTTCCCTTCATACCTTCATGCTATCGAATTCGTCGTTGCGGCCTCAATCCTTCC
** *
247131 CATCACATCTAAGGTACAAGGCTTGCTGTTG
66 CATCACATCTAAGGTACAAGGCTTGCCATTA
* *
247162 TGGCTTCAACCTTTCCCTTCA
1 CGGCCTCAACCTTTCCCTTCA
247183 CATTTTCAGG
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
96 36 0.35
99 66 0.64
100 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.15, T:0.36
Consensus pattern (96 bp):
CGGCCTCAACCTTTCCCTTCATACCTTCATGCTATCGAATTCGTCGTTGCGGCCTCAATCCTTCC
CATCACATCTAAGGTACAAGGCTTGCCATTA
Found at i:247129 original size:49 final size:49
Alignment explanation
Indices: 246957--247140 Score: 153
Period size: 49 Copynumber: 3.7 Consensus size: 49
246947 AGGTACCGGG
* * * *
246957 TTCGTCGTTGCGGCCTCAACCTTTCCCTTCATACCTTCAT-CGTATCGAA
1 TTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTATGC-TATCGGA
* * *
247006 TTCGTTGTTGCGGCCTCAATCC-TT-CCTATCACATCTTTTAAGGTA-CATGG-
1 TTCGTCGTTGCGGCCTCAA-CCTTTCCCT-TCACATC-TTTATGCTATC--GGA
* * * * *
247056 TTTGCCATTACGGCCTCAACCTTTCCCTTCATATCTTTATGCTATCGGA
1 TTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTATGCTATCGGA
* *
247105 TTCGTCGTTGCGGCCTCAATCTTTCCCATCACATCT
1 TTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCT
247141 AAGGTACAAG
Statistics
Matches: 103, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
48 5 0.05
49 64 0.62
50 30 0.29
51 4 0.04
ACGTcount: A:0.17, C:0.32, G:0.15, T:0.37
Consensus pattern (49 bp):
TTCGTCGTTGCGGCCTCAACCTTTCCCTTCACATCTTTATGCTATCGGA
Found at i:247210 original size:96 final size:97
Alignment explanation
Indices: 246967--247223 Score: 234
Period size: 96 Copynumber: 2.6 Consensus size: 97
246957 TTCGTCGTTG
* * * * * *** *
246967 CGGCCTCAACCTTTCCCTTCATACCTTCA-TCGTATCGAATTCGTTGTTGCGGCCTCAATCCTTC
1 CGGCCTCAACCTTTCCCTTCACATCTTTAGGC-TATCGGATTCACCGTTGCGGCCTCAATCTTTC
* * *
247031 CTATCACATCTTTTAAGGTACATGGTTTGCCATTA
65 CCATCACATC--TTAAGGTACAAGGCTTGCCATTA
* * **
247066 CGGCCTCAACCTTTCCCTTCATATCTTTATGCTATCGGATTCGTCGTTGCGGCCTCAATCTTTCC
1 CGGCCTCAACCTTTCCCTTCACATCTTTAGGCTATCGGATTCACCGTTGCGGCCTCAATCTTTCC
** *
247131 CATCACATC-TAAGGTACAAGGCTTGCTGTTG
66 CATCACATCTTAAGGTACAAGGCTTGCCATTA
* * * *
247162 TGGCTTCAACCTTTCCCTTCACAT-TTTCAGGGTAT-GAGATTTACCGTTGCGGCCTCAATCTT
1 CGGCCTCAACCTTTCCCTTCACATCTTT-AGGCTATCG-GATTCACCGTTGCGGCCTCAATCTT
247224 CCCTGTCAAA
Statistics
Matches: 135, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
95 4 0.03
96 65 0.48
99 65 0.48
100 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (97 bp):
CGGCCTCAACCTTTCCCTTCACATCTTTAGGCTATCGGATTCACCGTTGCGGCCTCAATCTTTCC
CATCACATCTTAAGGTACAAGGCTTGCCATTA
Found at i:264555 original size:14 final size:14
Alignment explanation
Indices: 264536--264562 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
264526 TTTTTGAAAT
264536 TATTAAAATTATTA
1 TATTAAAATTATTA
264550 TATTAAAATTATT
1 TATTAAAATTATT
264563 TTAAAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTAAAATTATTA
Found at i:265280 original size:17 final size:17
Alignment explanation
Indices: 265258--265293 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
265248 TTTCCTAGGC
265258 TTTTTTTATAAAAATAA
1 TTTTTTTATAAAAATAA
* *
265275 TTTTTTTTTAAAATTAA
1 TTTTTTTATAAAAATAA
265292 TT
1 TT
265294 ACTTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTTATAAAAATAA
Found at i:265903 original size:91 final size:90
Alignment explanation
Indices: 265688--265931 Score: 285
Period size: 91 Copynumber: 2.7 Consensus size: 90
265678 TTTTGTTTAA
* * ** * *
265688 AAAAAATTATTTAATTAAAGTGATGGCGCCATTTAATATGATAATATCAAAAAAATTTTAAATTT
1 AAAAAATTATTTAATTAAAGTGGTGGCGCCATTTAATATGACACCAACAAAAAAA--TTAAAATT
* *
265753 ATTTTAAAAATATAAAAAAATTTTATTT
64 ATTTTAAAAATATAAAAAAA-TATAATT
*
265781 AAAAAATTATTTAATTAAAAG-GGTGACGCCATTTAATATGACACCAACAAAAAAATTAAAATTA
1 AAAAAATTATTTAATT-AAAGTGGTGGCGCCATTTAATATGACACCAACAAAAAAATTAAAATTA
265845 TTTTAAAAATATAATTAAAAA-ATAATT
65 TTTTAAAAATATAA--AAAAATATAATT
** * * * *
265872 AAAATTTTATTTAATTAAAGTGGTGGTGCCATCTAATATGACACCACCAAAAAATTTAAA
1 AAAAAATTATTTAATTAAAGTGGTGGCGCCATTTAATATGACACCAACAAAAAAATTAAA
265932 TTTTCAAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
90 4 0.03
91 74 0.56
93 49 0.37
94 4 0.03
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (90 bp):
AAAAAATTATTTAATTAAAGTGGTGGCGCCATTTAATATGACACCAACAAAAAAATTAAAATTAT
TTTAAAAATATAAAAAAATATAATT
Found at i:265953 original size:91 final size:91
Alignment explanation
Indices: 265787--265954 Score: 216
Period size: 91 Copynumber: 1.8 Consensus size: 91
265777 ATTTAAAAAA
* **
265787 TTATTTAATTAAAAGGGTGACGCCATTTAATATGACACCAACAAAAAAATTAAAATTATTTTAAA
1 TTATTTAATTAAAAGGGTGACGCCATCTAATATGACACCAACAAAAAAATTAAAATTATTAAAAA
*
265852 AATATAATTAAAAAATAATTAAAATT
66 AATAAAATTAAAAAATAATTAAAATT
** * *
265878 TTATTTAATT-AAAGTGGTGGTGCCATCTAATATGACACC-ACCAAAAAATTTAAATT-TTCAAA
1 TTATTTAATTAAAAG-GGTGACGCCATCTAATATGACACCAACAAAAAAATTAAAATTATT-AAA
265940 AAAATAAATATTAAA
64 AAAATAAA-ATTAAA
265955 TAAAAAAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.03
90 27 0.41
91 37 0.56
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (91 bp):
TTATTTAATTAAAAGGGTGACGCCATCTAATATGACACCAACAAAAAAATTAAAATTATTAAAAA
AATAAAATTAAAAAATAATTAAAATT
Done.